Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C394
  Reference Plasmid   NZ_AP027793.1
  Reference Plasmid Size   81096
  Reference Plasmid GC Content   0.53
  Reference Plasmid Mobility Type   conjugative





Mutation sites in the plasmid cluster


The table lists mutations identified in the plasmid cluster.
Note: Mutations identified in this plasmid cluster are listed below. Click on a mutation ID to view full details..

mutid gname pos count tissue frequnt biotype consequence impact nucchange aachange
M0163757 NOOMJLFI_00063 59696 3 Gut 0.33 protein_coding synonymous_variant LOW 1581C>T Gly527Gly
M0163758 NOOMJLFI_00063 59835 3 Gut 0.33 protein_coding synonymous_variant LOW 1720A>C Arg574Arg
M0163759 NOOMJLFI_00019 20706 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -4992C>T None
M0163760 NOOMJLFI_00020 20754 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -4875C>T None
M0163761 NOOMJLFI_00027 21046 3 Gut 0.33 protein_coding missense_variant MODERATE 190A>G Thr64Ala
M0163762 NOOMJLFI_00027 21429 3 Gut 0.33 protein_coding synonymous_variant LOW 573A>C Ala191Ala
M0163763 NOOMJLFI_00029 22852 3 Gut 0.33 protein_coding synonymous_variant LOW 285C>T Ala95Ala
M0163764 NOOMJLFI_00029 22868 3 Gut 0.33 protein_coding missense_variant MODERATE 301A>G Thr101Ala
M0163765 NOOMJLFI_00029 22999 3 Gut 0.33 protein_coding synonymous_variant LOW 432C>T Thr144Thr
M0163766 NOOMJLFI_00029 23147 3 Gut 0.33 protein_coding missense_variant MODERATE 580T>C Cys194Arg
M0163767 NOOMJLFI_00032 26554 3 Gut 0.33 protein_coding synonymous_variant LOW 645A>C Thr215Thr
M0163768 NOOMJLFI_00035 29362 3 Gut 0.33 protein_coding synonymous_variant LOW 270T>C Pro90Pro
M0163769 NOOMJLFI_00037 30981 3 Gut 0.33 protein_coding missense_variant MODERATE 42T>A Asp14Glu
M0163770 NOOMJLFI_00009 11545 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -4624G>A None






Analysis of virulence factors contributing to bacterial pathogenicity


This table presents virulence factors identified within the plasmid cluster.
      Note: Virulence factor analysis was performed using VFDB. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known virulence factors are listed.

Gene Name vf_gene_id vf_name identity evalue qstart qend query_coverage subject_coverage vf_category gene_description condition







        Analysis of biocide and heavy metal resistance genes to assess antimicrobial risk and environmental impact


This table presents biocides and heavy metals resistance genes identified within the plasmid cluster.
      Note: Analyzing biocide and heavy metal resistance genes based on BacMet to evaluate bacterial resistance risk and the potential impact of environmental heavy metal contamination. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, E-value < 1e-5) to known biocide and heavy metal resistance genes are listed.

Gene Name compound identity evalue qstart qend query_coverage subject_coverage group






        Analyzing antimicrobial resistance genes to assess bacterial resistance to antibiotics and other antimicrobial agents


This table presents antimicrobial resistance genes identified within the plasmid cluster.
      Note: Antimicrobial resistance was performed using CARD. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known antimicrobial resistance genes are listed.

Gene Name aro_accession identity evalue qstart qend query_coverage subject_coverage drug_class amr_gene_family resistance_mechanism






Analysis of pathogenicity genes to explore pathogen-host interactions


This table presents host pathogen-host interactions within the plasmid cluster.
      Note: Analyzing pathogenicity-related genes using PHI-base to understand pathogen virulence mechanisms and their impact on host interactions. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e-5) to known pathogenicity-related genes are listed.

Gene Name phi_molconn_id host gene_name identity evalue qstart qend query_coverage subject_coverage host_descripton disease_name function phenotype_of_mutant






        Analyzing carbohydrate-active enzyme genes to uncover mechanisms of nutrient degradation


This table presents carbohydrate-active enzyme genes identified within the plasmid cluster.
      Note: Annotation of carbohydrate-active enzyme genes was performed using CAZy to explore mechanisms of nutrient breakdown and utilization. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known CAZyme genes are listed.

Gene Name cazy_id identity evalue qstart qend query_coverage subject_coverage
NOOMJLFI_00040 SPE00673.1|GH23 100 1.33e-115 1 161 1 1





        Analyzing transport proteins to understand bacterial strategies for substrate uptake and detoxification


This table presents transport proteins within the plasmid cluster.
      Note: Investigation of transport proteins based on TCDB to uncover bacterial mechanisms of substrate transport and environmental detoxification. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known transport protein entries are listed.

Gene Name tcid identity evalue qstart qend query_coverage subject_coverage class_field class_term subclass subclass_term family family_term
NOOMJLFI_00046 3.A.7.10.1 77.9 5.1e-124 1 271 0.9748 2.8021 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
NOOMJLFI_00047 3.A.7.10.1 77.8 1.7e-175 1 379 0.9921 3.9479 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
NOOMJLFI_00050 3.A.7.10.1 73.3 1.9e-40 1 116 1.0000 1.1979 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
NOOMJLFI_00052 3.A.7.10.1 74.9 1.5e-138 1 324 1.0000 3.4063 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
NOOMJLFI_00066 1.E.53.1.10 97.7 9.7e-18 8 50 0.8600 1.0000 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
NOOMJLFI_00074 3.A.7.10.1 75.6 2.4e-189 1 401 0.9155 4.1771 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
NOOMJLFI_00076 3.A.7.10.1 79.7 0 1 724 0.9439 7.5417 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family